Identifying oxidative stress-related biomarkers in idiopathic pulmonary fibrosis in the context of predictive, preventive, and personalized medicine using integrative omics approaches and machine-learning strategies

Aspirin alleviates pulmonary fibrosis through PI3K/AKT/mTOR-mediated autophagy pathway

(2023) Jieting Peng et al.   EXPERIMENTAL GERONTOLOGY

Identification and immunological characterization of cuproptosis-related molecular clusters in idiopathic pulmonary fibrosis disease

(2023) Xuefeng Shi et al.   Frontiers in Immunology

Integrating oculomics with genomics reveals imaging biomarkers for preventive and personalized prediction of arterial aneurysms

(2023) Yu Huang et al.   EPMA Journal

Diabetic retinopathy as the leading cause of blindness and early predictor of cascading complications—risks and mitigation

(2023) Martina Kropp et al.   EPMA Journal

Advancing the Adverse Outcome Pathway for PPARγ Inactivation Leading to Pulmonary Fibrosis Using Bradford-Hill Consideration and the Comparative Toxicogenomics Database

(2022) Jaeseong Jeong et al.   CHEMICAL RESEARCH IN TOXICOLOGY

Idiopathic pulmonary fibrosis: Current and future treatment

(2022) Daniel S. Glass et al.   Clinical Respiratory Journal

MMP-3 activation is involved in copper oxide nanoparticle-induced epithelial-mesenchymal transition in human lung epithelial cells

(2022) Yuanbao Zhang et al.   Nanotoxicology

Targeting Oxidative Stress as a Therapeutic Approach for Idiopathic Pulmonary Fibrosis

(2022) Cristina Estornut et al.   Frontiers in Pharmacology

Idiopathic Pulmonary Fibrosis (an Update) and Progressive Pulmonary Fibrosis in Adults: An Official ATS/ERS/JRS/ALAT Clinical Practice Guideline

(2022) Ganesh Raghu et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

FOXO4 peptide targets myofibroblast ameliorates bleomycin‐induced pulmonary fibrosis in mice through ECM‐receptor interaction pathway

(2022) Xiaodan Han et al.   JOURNAL OF CELLULAR AND MOLECULAR MEDICINE

GSPE Protects against Bleomycin-Induced Pulmonary Fibrosis in Mice via Ameliorating Epithelial Apoptosis through Inhibition of Oxidative Stress

(2022) Ok Joo Sul et al.   Oxidative Medicine and Cellular Longevity

Management of musculoskeletal pain in patients with idiopathic pulmonary fibrosis: a review

(2022) Svetlana Kašiković Lečić et al.   UPSALA JOURNAL OF MEDICAL SCIENCES

A new gene set identifies senescent cells and predicts senescence-associated pathways across tissues

(2022) Dominik Saul et al.   Nature Communications

CellMarker 2.0: an updated database of manually curated cell markers in human/mouse and web tools based on scRNA-seq data

(2022) Congxue Hu et al.   NUCLEIC ACIDS RESEARCH

DNA and histone modifications as potent diagnostic and therapeutic targets to advance non-small cell lung cancer management from the perspective of 3P medicine

(2022) Guodong Zhang et al.   EPMA Journal

Increased expression and accumulation of GDF15 in IPF extracellular matrix contribute to fibrosis

(2022) Agata Radwanska et al.   JCI Insight

Identification and immune characteristics of molecular subtypes related to fatty acid metabolism in idiopathic pulmonary fibrosis

(2022) Fan Yang et al.   Frontiers in Nutrition

CXC Chemokines in the Pathogenesis of Pulmonary Disease and Pharmacological Relevance

(2022) Kayode Komolafe et al.   International Journal of Inflammation

Effect of M6A regulators on diagnosis, subtype classification, prognosis and novel therapeutic target development of idiopathic pulmonary fibrosis

(2022) Guirui Huang et al.   Frontiers in Pharmacology

Idiopathic pulmonary fibrosis: prime time for a precision-based approach to treatment with N-acetylcysteine

(2021) Anna J. Podolanczuk et al.   EUROPEAN RESPIRATORY JOURNAL

Mapping air pollution and idiopathic pulmonary fibrosis

(2021) Michael J. Abramson et al.   RESPIROLOGY

TGFβ1 induces resistance of human lung myofibroblasts to cell death via downregulation of TRPA1

(2021) H. S. Virk et al.   BRITISH JOURNAL OF PHARMACOLOGY

More than neutrophils: Lin(+)Ly6G(+)IL‐5Rα(+) multipotent myeloid cells (MMCs) are dominant in normal murine bone marrow and retain capacity to differentiate into eosinophils and monocytes

(2021) Brian M. Jeong et al.   JOURNAL OF LEUKOCYTE BIOLOGY

SIRT3 Overexpression Ameliorates Asbestos-Induced Pulmonary Fibrosis, mt-DNA Damage, and Lung Fibrogenic Monocyte Recruitment

(2021) Paul Cheresh et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

The interplay of DAMPs, TLR4, and proinflammatory cytokines in pulmonary fibrosis

(2021) Siavash Bolourani et al.   JOURNAL OF MOLECULAR MEDICINE-JMM

Osthole Attenuates Bleomycin-Induced Pulmonary Fibrosis by Modulating NADPH Oxidase 4-Derived Oxidative Stress in Mice

(2021) Lijun Fang et al.   Oxidative Medicine and Cellular Longevity

Connective-Tissue Growth Factor (CTGF/CCN2) Contributes to TGF-β1-Induced Lung Fibrosis

(2021) Toyoshi Yanagihara et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

Animal models of drug-induced pulmonary fibrosis: an overview of molecular mechanisms and characteristics

(2021) Shuchan Li et al.   CELL BIOLOGY AND TOXICOLOGY

Ferroptosis-Related Genes in Bronchoalveolar Lavage Fluid Serves as Prognostic Biomarkers for Idiopathic Pulmonary Fibrosis

(2021) Meng Li et al.   Frontiers in Medicine

Pirfenidone: Molecular Mechanisms and Potential Clinical Applications in Lung Disease

(2020) Saleela M Ruwanpura et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

Acute exacerbation of idiopathic pulmonary fibrosis: International survey and call for harmonisation

(2020) Michael Kreuter et al.   EUROPEAN RESPIRATORY JOURNAL

Associations of Serological Biomarkers of sICAM-1, IL-1β, MIF, and su-PAR with 3-Month Mortality in Acute Exacerbation of Idiopathic Pulmonary Fibrosis

(2020) Xuran Li et al.   MEDIATORS OF INFLAMMATION

Occupational and environmental risk factors for idiopathic pulmonary fibrosis in Australia: case–control study

(2020) Michael J Abramson et al.   THORAX

Establishment and Analysis of a Combined Diagnostic Model of Polycystic Ovary Syndrome with Random Forest and Artificial Neural Network

(2020) Ning-Ning Xie et al.   Biomed Research International

Identification of key modules and hub genes associated with lung function in idiopathic pulmonary fibrosis

(2020) Yuechong Xia et al.   PeerJ

Emerging cellular and molecular determinants of idiopathic pulmonary fibrosis

(2020) Thị Hằng Giang Phan et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Safety of N-Acetylcysteine at High Doses in Chronic Respiratory Diseases: A Review

(2020) Peter Calverley et al.   DRUG SAFETY

NADPH Oxidase-Mediated Induction of Reactive Oxygen Species and Extracellular Matrix Deposition by Insulin-like Growth Factor Binding Protein-5

(2019) Hidekata Yasuoka et al.   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

PAI-1 Regulation of TGF-β1-induced ATII Cell Senescence, SASP Secretion, and SASP-mediated Activation of Alveolar Macrophages

(2019) Tapasi Rana et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

COX‐2/sEH dual inhibitor PTUPB alleviates bleomycin‐induced pulmonary fibrosis in mice via inhibiting senescence

(2019) Chen‐Yu Zhang et al.   FEBS Journal

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Epithelial cell-derived cytokines CST3 and GDF15 as potential therapeutics for pulmonary fibrosis

(2018) Young-Im Kim et al.   Cell Death & Disease

Loss of PTEN induces lung fibrosis via alveolar epithelial cell senescence depending on NF‐κB activation

(2018) Yaqiong Tian et al.   AGING CELL

Oxidative/nitrosative stress, autophagy and apoptosis as therapeutic targets of melatonin in idiopathic pulmonary fibrosis

(2018) Azam Hosseinzadeh et al.   EXPERT OPINION ON THERAPEUTIC TARGETS

Lysocardiolipin acyltransferase regulates TGF-β mediated lung fibroblast differentiation

(2017) Long Shuang Huang et al.   FREE RADICAL BIOLOGY AND MEDICINE

Pentaerythritol Tetranitrate In Vivo Treatment Improves Oxidative Stress and Vascular Dysfunction by Suppression of Endothelin-1 Signaling in Monocrotaline-Induced Pulmonary Hypertension

(2017) Sebastian Steven et al.   Oxidative Medicine and Cellular Longevity

Mechanosignaling through YAP and TAZ drives fibroblast activation and fibrosis

(2015) Fei Liu et al.   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

The mannose-6-phosphate analogue, PXS64, inhibits fibrosis via TGF-β1 pathway in human lung fibroblasts

(2015) Heidi Schilter et al.   IMMUNOLOGY LETTERS

ERK5 regulates basic fibroblast growth factor-induced type 1 plasminogen activator inhibitor expression and cell proliferation in lung fibroblasts

(2015) Jung-Hwa Han et al.   LIFE SCIENCES

Involvement of Kruppel-like factor 9 in bleomycin-induced pulmonary toxicity

(2015) YUE GU et al.   Molecular Medicine Reports

PPARγ activation following apoptotic cell instillation promotes resolution of lung inflammation and fibrosis via regulation of efferocytosis and proresolving cytokines

(2015) Y-S Yoon et al.   Mucosal Immunology

Robust enumeration of cell subsets from tissue expression profiles

(2015) Aaron M Newman et al.   NATURE METHODS

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

FastRFunctions for Robust Correlations and Hierarchical Clustering

(2015) Peter Langfelder et al.   Journal of Statistical Software

Alteration of Connective Tissue Growth Factor (CTGF) Expression in Orbital Fibroblasts from Patients with Graves’ Ophthalmopathy

(2015) Chieh-Chih Tsai et al.   PLoS One

circlize implements and enhances circular visualization in R

(2014) Zuguang Gu et al.   BIOINFORMATICS

The psychometric properties of the St George’s Respiratory Questionnaire (SGRQ) in patients with idiopathic pulmonary fibrosis: a literature review

(2014) Jeffrey J Swigris et al.   Health and Quality of Life Outcomes

Nrf2 Amplifies Oxidative Stress via Induction of Klf9

(2014) Shoshanna N. Zucker et al.   MOLECULAR CELL

Reversal of Persistent Fibrosis in Aging by Targeting Nox4-Nrf2 Redox Imbalance

(2014) L. Hecker et al.   Science Translational Medicine

Heterogeneous gene expression signatures correspond to distinct lung pathologies and biomarkers of disease severity in idiopathic pulmonary fibrosis

(2014) Daryle J DePianto et al.   THORAX

Pulmonary Antifibrotic Mechanisms Aspirin-Triggered Lipoxin A4Synthetic Analog

(2013) Rafael F. Guilherme et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

Pathview: an R/Bioconductor package for pathway-based data integration and visualization

(2013) Weijun Luo et al.   BIOINFORMATICS

ROS play a critical role in the differentiation of alternatively activated macrophages and the occurrence of tumor-associated macrophages

(2013) Yan Zhang et al.   CELL RESEARCH

Sildenafil Preserves Exercise Capacity in Patients With Idiopathic Pulmonary Fibrosis and Right-sided Ventricular Dysfunction

(2013) MeiLan K. Han et al.   CHEST

Expression of cilium-associated genes defines novel molecular subtypes of idiopathic pulmonary fibrosis

(2013) Ivana V Yang et al.   THORAX

Troglitazone Attenuates TGF-β1-Induced EMT in Alveolar Epithelial Cells via a PPARγ-Independent Mechanism

(2012) Beiyun Zhou et al.   PLoS One

Therapeutic Value of Small Molecule Inhibitor to Plasminogen Activator Inhibitor–1 for Lung Fibrosis

(2011) Wen-Tan Huang et al.   AMERICAN JOURNAL OF RESPIRATORY CELL AND MOLECULAR BIOLOGY

Oxidative stress contributes to the induction and persistence of TGF-β1 induced pulmonary fibrosis

(2011) Ye Cui et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

ggplot2: Elegant Graphics for Data Analysis

(2011) Cedric Ginestet   JOURNAL OF THE ROYAL STATISTICAL SOCIETY SERIES A-STATISTICS IN SOCIETY

Sphingosine-1-phosphate is increased in patients with idiopathic pulmonary fibrosis and mediates epithelial to mesenchymal transition

(2011) Javier Milara et al.   THORAX

ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking

(2010) Matthew D. Wilkerson et al.   BIOINFORMATICS

Gene Expression Profiles of Acute Exacerbations of Idiopathic Pulmonary Fibrosis

(2009) Kazuhisa Konishi et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

PPAR-γ agonists inhibit profibrotic phenotypes in human lung fibroblasts and bleomycin-induced pulmonary fibrosis

(2007) Jami E. Milam et al.   AMERICAN JOURNAL OF PHYSIOLOGY-LUNG CELLULAR AND MOLECULAR PHYSIOLOGY

Baseline BAL Neutrophilia Predicts Early Mortality in Idiopathic Pulmonary Fibrosis

(2007) Brent W. Kinder et al.   CHEST